Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Forward (+)

5854356 .. 5856106

Gene Structure 1751 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG072700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGCCGAAACTTTTCTCTTCCATATTTCTCAGTTCTTCCATTGATTCAACTCTGGAAAAAGAAGCACCAACAAATCGAACATTCGACTTTTGTTTTTTGCTCTCAAGTTGGAAATCAGCCTTAATGCGGATTCCCGCCGACGAAGTTAATAGCACAATTCAAAATGCAAAAAGAAAGCACACATATACGGTGTGGGGCATTCCACCAGATCACATCGTACAGAGGATCAAGATGATAATGGAGCCCCTGCGAGCTGAGTTTGGTGGGCCCGAGATAGAGCCCCACATTACCGCCGTAGGATCTGTCCTTTTGACGCATGACTACGCGGTCAAACAATTTATAAATGGTTGTGAAAATATAGAACCCTACGCTTGTGAAGTTGATCAGGTGGTTACTCGCAAATTCTATTACCAACCTGTCTCTCTCCTTTTTTATCCATGTCCATGGGTTGGACACTTTGGTGGTTATCTACATCGCTGTAATTCTCATATGCCGCACTTGAGCCTCCTTTATGGGAATTTGACAGAGGAAGAGAGGAAGAGAGCTCTAGAAAAGGTTACTGAGCTGGACGACAACATTGCTAGCCTCAAGTTCACCATAAGTCACCTTATTTTGTACAAAACCCACAATGAAGCTAGAGATCAACATTCTTGGGAGAAGGTTATGGAATACAACCTCCGACAGCGCAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

230

Amino Acids

26.71

Weight (kDa)

6.59

Isoelectric Point (pI)

51.35

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005055)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18930
fragaria_vesca	FvH4_3g06750 FvH4_3g06750 FvH4_3g06750 FvH4_6g06860 FvH4_6g06860
malus_domestica	MD10G1271200.v1.1 MD10G1271300.v1.1
prunus_persica	Prupe.4G070300_v2.0.a1 Prupe.6G318900_v2.0.a1
pyrus_communis	pycom10g22700
rosa_chinensis	RchiOBHm_Chr3g0456341 RchiOBHm_Chr5g0012411
rosa_laevigata	RLG00000025311 RLG00000031911
rosa_multiflora	Rmu_co8444057.1_g000001 Rmu_sc0002607.1_g000022 Rmu_sc0018054.1_g000004
rosa_roxburghii	Rroxscaffold_1G00064260 Rroxscaffold_6G00422810
rosa_rugosa	Rorug05G0000900
rosa_samantha	Rh3AG072700 Rh3BG074800 Rh3CG074400 Rh5AG095400 Rh5AG499800 Rh5BG091600 Rh5DG091000
rosa_wichuraiana	Rw3G006240 Rw5G008340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	341
AasI	GACNNNNNNGTC	1 cut(s)	326
AccB7I	CCANNNNNTGG	1 cut(s)	449
AccII	CGCG	1 cut(s)	326
AciI	CCGC	5 cut(s)	127, 135, 291, 326, 494
AclWI	GGATC	2 cut(s)	233, 307
AcsI	RAATTY	2 cut(s)	401, 517
AfaI	GTAC	2 cut(s)	219, 617
AfiI	CCNNNNNNNGG	2 cut(s)	126, 449
AgsI	TTSAA	2 cut(s)	48, 161
AleI	CACNNNNGTG	1 cut(s)	459
AluBI	AGCT	4 cut(s)	254, 545, 565, 635
AluI	AGCT	4 cut(s)	254, 545, 565, 635
Alw21I	GWGCWC	1 cut(s)	547
Alw26I	GTCTC	1 cut(s)	424
AlwI	GGATC	2 cut(s)	233, 307
Ama87I	CYCGRG	1 cut(s)	269
AoxI	GGCC	1 cut(s)	266
ApaI	GGGCCC	1 cut(s)	270
ApoI	RAATTY	2 cut(s)	401, 517
Asp700I	GAANNNNTTC	1 cut(s)	11
AspLEI	GCGC	1 cut(s)	687
AspS9I	GGNCC	2 cut(s)	266, 267
AsuHPI	GGTGA	2 cut(s)	586, 596
AsuNHI	GCTAGC	1 cut(s)	581
AvaI	CYCGRG	1 cut(s)	269
BaeGI	GKGCMC	1 cut(s)	270
BanII	GRGCYC	4 cut(s)	246, 270, 282, 547
Bbv12I	GWGCWC	1 cut(s)	547
BceAI	ACGGC	1 cut(s)	278
BcgI	CGANNNNNNTGC	2 cut(s)	560, 594
BclI	TGATCA	1 cut(s)	382
BcoDI	GTCTC	1 cut(s)	424
BfaI	CTAG	3 cut(s)	548, 582, 636
BisI	GCNGC	1 cut(s)	494
BlsI	GCNGC	1 cut(s)	495
BmeT110I	CYCGRG	1 cut(s)	269
BmgT120I	GGNCC	2 cut(s)	266, 267
BmiI	GGNNCC	2 cut(s)	243, 268
BmtI	GCTAGC	1 cut(s)	585
BpuEI	CTTGAG	3 cut(s)	88, 520, 572
BsaJI	CCNNGG	1 cut(s)	443
Bsc4I	CCNNNNNNNGG	2 cut(s)	126, 449
Bse3DI	GCAATG	1 cut(s)	576
BseDI	CCNNGG	1 cut(s)	443
BseLI	CCNNNNNNNGG	2 cut(s)	126, 449
BseMI	GCAATG	1 cut(s)	576
BseMII	CTCAG	3 cut(s)	43, 246, 552
BseSI	GKGCMC	1 cut(s)	270
Bsh1236I	CGCG	1 cut(s)	326
BshFI	GGCC	1 cut(s)	268
BsiHKAI	GWGCWC	1 cut(s)	547
BsiHKCI	CYCGRG	1 cut(s)	269
BslI	CCNNNNNNNGG	2 cut(s)	126, 449
BsmAI	GTCTC	1 cut(s)	424
BsmI	GAATGC	1 cut(s)	198
BsnI	GGCC	1 cut(s)	268
BsoBI	CYCGRG	1 cut(s)	269
Bsp120I	GGGCCC	1 cut(s)	266
Bsp1286I	GDGCHC	4 cut(s)	246, 270, 282, 547
Bsp1407I	TGTACA	1 cut(s)	615
Bsp143I	GATC	5 cut(s)	208, 225, 299, 382, 640
Bsp19I	CCATGG	1 cut(s)	443
BspACI	CCGC	5 cut(s)	127, 135, 291, 326, 494
BspANI	GGCC	1 cut(s)	268
BspCNI	CTCAG	3 cut(s)	42, 247, 553
BspFNI	CGCG	1 cut(s)	326
BspLI	GGNNCC	2 cut(s)	243, 268
BspOI	GCTAGC	1 cut(s)	585
BspPI	GGATC	2 cut(s)	233, 307
BsrDI	GCAATG	1 cut(s)	576
BsrGI	TGTACA	1 cut(s)	615
BssECI	CCNNGG	1 cut(s)	443
BssMI	GATC	5 cut(s)	208, 225, 299, 382, 640
BssT1I	CCWWGG	1 cut(s)	443
Bst4CI	ACNGT	1 cut(s)	190
Bst6I	CTCTTC	3 cut(s)	22, 525, 533
BstAUI	TGTACA	1 cut(s)	615
BstC8I	GCNNGC	2 cut(s)	252, 583
BstDEI	CTNAG	3 cut(s)	29, 255, 561
BstDSI	CCRYGG	1 cut(s)	443
BstFNI	CGCG	1 cut(s)	326
BstHHI	GCGC	1 cut(s)	687
BstKTI	GATC	5 cut(s)	211, 228, 302, 385, 643
BstMAI	GTCTC	1 cut(s)	424
BstMBI	GATC	5 cut(s)	208, 225, 299, 382, 640
BstSLI	GKGCMC	1 cut(s)	270
BstUI	CGCG	1 cut(s)	326
BstX2I	RGATCY	1 cut(s)	299
BstXI	CCANNNNNNTGG	1 cut(s)	444
BstYI	RGATCY	1 cut(s)	299
BsuRI	GGCC	1 cut(s)	268
BtgI	CCRYGG	1 cut(s)	443
BtgZI	GCGATG	1 cut(s)	458
Cac8I	GCNNGC	2 cut(s)	252, 583
CfoI	GCGC	1 cut(s)	687
Cfr13I	GGNCC	2 cut(s)	266, 267
CseI	GACGC	1 cut(s)	322
Csp6I	GTAC	2 cut(s)	218, 616
CviAII	CATG	3 cut(s)	317, 438, 444
CviQI	GTAC	2 cut(s)	218, 616
DdeI	CTNAG	3 cut(s)	29, 255, 561
DpnI	GATC	5 cut(s)	210, 227, 301, 384, 642
DpnII	GATC	5 cut(s)	208, 225, 299, 382, 640
DrdI	GACNNNNNNGTC	1 cut(s)	326
DseDI	GACNNNNNNGTC	1 cut(s)	326
Eam1104I	CTCTTC	3 cut(s)	22, 525, 533
EarI	CTCTTC	3 cut(s)	22, 525, 533
Ecl136II	GAGCTC	1 cut(s)	545
Eco130I	CCWWGG	1 cut(s)	443
Eco24I	GRGCYC	4 cut(s)	246, 270, 282, 547
Eco53kI	GAGCTC	1 cut(s)	545
Eco88I	CYCGRG	1 cut(s)	269
EcoICRI	GAGCTC	1 cut(s)	545
EcoT14I	CCWWGG	1 cut(s)	443
EcoT38I	GRGCYC	4 cut(s)	246, 270, 282, 547
ErhI	CCWWGG	1 cut(s)	443
FaeI	CATG	3 cut(s)	320, 441, 447
FatI	CATG	3 cut(s)	316, 437, 443
FauI	CCCGC	1 cut(s)	142
FauNDI	CATATG	1 cut(s)	489
FbaI	TGATCA	1 cut(s)	382
Fnu4HI	GCNGC	1 cut(s)	494
FriOI	GRGCYC	4 cut(s)	246, 270, 282, 547
Fsp4HI	GCNGC	1 cut(s)	494
FspBI	CTAG	3 cut(s)	548, 582, 636
GlaI	GCGC	1 cut(s)	686
GluI	GCNGC	1 cut(s)	494
HaeIII	GGCC	1 cut(s)	268
HgaI	GACGC	1 cut(s)	322
HhaI	GCGC	1 cut(s)	687
Hin1II	CATG	3 cut(s)	320, 441, 447
Hin6I	GCGC	1 cut(s)	685
HinP1I	GCGC	1 cut(s)	685
HinfI	GANTC	2 cut(s)	44, 130
HphI	GGTGA	2 cut(s)	586, 596
Hpy166II	GTNNAC	1 cut(s)	594
Hpy188I	TCNGA	1 cut(s)	680
Hpy188III	TCNNGA	3 cut(s)	53, 229, 548
Hpy8I	GTNNAC	1 cut(s)	594
Hpy99I	CGWCG	1 cut(s)	143
HpyAV	CCTTC	1 cut(s)	652
HpyCH4III	ACNGT	1 cut(s)	190
HpyCH4V	TGCA	1 cut(s)	167
HpyF3I	CTNAG	3 cut(s)	29, 255, 561
Hsp92II	CATG	3 cut(s)	320, 441, 447
HspAI	GCGC	1 cut(s)	685
Ksp22I	TGATCA	1 cut(s)	382
Kzo9I	GATC	5 cut(s)	208, 225, 299, 382, 640
LmnI	GCTCC	1 cut(s)	241
LpnPI	CCDG	6 cut(s)	38, 219, 260, 371, 429, 551
MaeI	CTAG	3 cut(s)	548, 582, 636
MaeIII	GTNAC	3 cut(s)	391, 556, 602
MalI	GATC	5 cut(s)	210, 227, 301, 384, 642
MboI	GATC	5 cut(s)	208, 225, 299, 382, 640
MboII	GAAGA	4 cut(s)	9, 27, 542, 550
MflI	RGATCY	1 cut(s)	299
MhlI	GDGCHC	4 cut(s)	246, 270, 282, 547
MluCI	AATT	6 cut(s)	156, 335, 401, 481, 517, 688
MmeI	TCCRAC	2 cut(s)	89, 430
MnlI	CCTC	6 cut(s)	216, 515, 520, 528, 596, 686
MroXI	GAANNNNTTC	1 cut(s)	11
MseI	TTAA	2 cut(s)	122, 147
MslI	CAYNNNNRTG	2 cut(s)	442, 459
Mva1269I	GAATGC	1 cut(s)	198
MvnI	CGCG	1 cut(s)	326
NcoI	CCATGG	1 cut(s)	443
NdeI	CATATG	1 cut(s)	489
NdeII	GATC	5 cut(s)	208, 225, 299, 382, 640
NheI	GCTAGC	1 cut(s)	581
NlaIII	CATG	3 cut(s)	320, 441, 447
NlaIV	GGNNCC	2 cut(s)	243, 268
NmuCI	GTSAC	1 cut(s)	602
OliI	CACNNNNGTG	1 cut(s)	459
PctI	GAATGC	1 cut(s)	198
PdmI	GAANNNNTTC	1 cut(s)	11
PfeI	GAWTC	2 cut(s)	44, 130
PflMI	CCANNNNNTGG	1 cut(s)	449
PkrI	GCNGC	1 cut(s)	495
PsiI	TTATAA	1 cut(s)	341
Psp124BI	GAGCTC	1 cut(s)	547
PspN4I	GGNNCC	2 cut(s)	243, 268
PspOMI	GGGCCC	1 cut(s)	266
PspPI	GGNCC	2 cut(s)	266, 267
PsuI	RGATCY	1 cut(s)	299
RsaI	GTAC	2 cut(s)	219, 617
RsaNI	GTAC	2 cut(s)	218, 616
RseI	CAYNNNNRTG	2 cut(s)	442, 459
SacI	GAGCTC	1 cut(s)	547
SaqAI	TTAA	2 cut(s)	122, 147
SatI	GCNGC	1 cut(s)	494
Sau3AI	GATC	5 cut(s)	208, 225, 299, 382, 640
Sau96I	GGNCC	2 cut(s)	266, 267
SduI	GDGCHC	4 cut(s)	246, 270, 282, 547
SmiMI	CAYNNNNRTG	2 cut(s)	442, 459
SmlI	CTYRAG	3 cut(s)	103, 499, 587
SmoI	CTYRAG	3 cut(s)	103, 499, 587
Sse9I	AATT	6 cut(s)	156, 335, 401, 481, 517, 688
SsiI	CCGC	5 cut(s)	127, 135, 291, 326, 494
SspMI	CTAG	3 cut(s)	548, 582, 636
SstI	GAGCTC	1 cut(s)	547
StyI	CCWWGG	1 cut(s)	443
TaaI	ACNGT	1 cut(s)	190
TaqI	TCGA	2 cut(s)	76, 84
TasI	AATT	6 cut(s)	156, 335, 401, 481, 517, 688
TatI	WGTACW	1 cut(s)	615
TauI	GCSGC	1 cut(s)	496
TfiI	GAWTC	2 cut(s)	44, 130
Tru1I	TTAA	2 cut(s)	122, 147
Tru9I	TTAA	2 cut(s)	122, 147
TseFI	GTSAC	1 cut(s)	602
Tsp45I	GTSAC	1 cut(s)	602
TspDTI	ATGAA	1 cut(s)	645
Van91I	CCANNNNNTGG	1 cut(s)	449
XapI	RAATTY	2 cut(s)	401, 517
XbaI	TCTAGA	1 cut(s)	547
XmnI	GAANNNNTTC	1 cut(s)	11
XspI	CTAG	3 cut(s)	548, 582, 636

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.